Job ID = 9162418 sra ファイルのダウンロード中... Completed: 818755K bytes transferred in 11 seconds (587079K bits/sec), in 1 file, 2 directories. sra ファイルのダウンロードが完了しました。 Read layout: PAIRED fastq に変換中... Written 9520445 spots for /home/okishinya/chipatlas/results/sacCer3/SRX2457698/SRR5138813.sra Written 9520445 spots total rm: cannot remove `[DSE]RR*.fastq': そのようなファイルやディレクトリはありません fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:00 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:13:12 9520445 reads; of these: 9520445 (100.00%) were paired; of these: 573784 (6.03%) aligned concordantly 0 times 8013818 (84.17%) aligned concordantly exactly 1 time 932843 (9.80%) aligned concordantly >1 times ---- 573784 pairs aligned concordantly 0 times; of these: 291613 (50.82%) aligned discordantly 1 time ---- 282171 pairs aligned 0 times concordantly or discordantly; of these: 564342 mates make up the pairs; of these: 424787 (75.27%) aligned 0 times 65611 (11.63%) aligned exactly 1 time 73944 (13.10%) aligned >1 times 97.77% overall alignment rate Time searching: 00:13:12 Overall time: 00:13:12 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_sort_core] merging from 8 files... [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 1136555 / 9185916 = 0.1237 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Wed, 28 Jun 2017 08:04:05: # Command line: callpeak -t SRX2457698.bam -f BAM -g 12100000 -n SRX2457698.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX2457698.10 # format = BAM # ChIP-seq file = ['SRX2457698.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 28 Jun 2017 08:04:05: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:04:05: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:04:05: # Command line: callpeak -t SRX2457698.bam -f BAM -g 12100000 -n SRX2457698.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX2457698.05 # format = BAM # ChIP-seq file = ['SRX2457698.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 28 Jun 2017 08:04:05: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:04:05: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:04:05: # Command line: callpeak -t SRX2457698.bam -f BAM -g 12100000 -n SRX2457698.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX2457698.20 # format = BAM # ChIP-seq file = ['SRX2457698.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Wed, 28 Jun 2017 08:04:05: #1 read tag files... INFO @ Wed, 28 Jun 2017 08:04:05: #1 read treatment tags... INFO @ Wed, 28 Jun 2017 08:04:12: 1000000 INFO @ Wed, 28 Jun 2017 08:04:13: 1000000 INFO @ Wed, 28 Jun 2017 08:04:13: 1000000 INFO @ Wed, 28 Jun 2017 08:04:18: 2000000 INFO @ Wed, 28 Jun 2017 08:04:20: 2000000 INFO @ Wed, 28 Jun 2017 08:04:20: 2000000 INFO @ Wed, 28 Jun 2017 08:04:25: 3000000 INFO @ Wed, 28 Jun 2017 08:04:27: 3000000 INFO @ Wed, 28 Jun 2017 08:04:27: 3000000 INFO @ Wed, 28 Jun 2017 08:04:31: 4000000 INFO @ Wed, 28 Jun 2017 08:04:34: 4000000 INFO @ Wed, 28 Jun 2017 08:04:34: 4000000 INFO @ Wed, 28 Jun 2017 08:04:37: 5000000 INFO @ Wed, 28 Jun 2017 08:04:41: 5000000 INFO @ Wed, 28 Jun 2017 08:04:41: 5000000 INFO @ Wed, 28 Jun 2017 08:04:44: 6000000 INFO @ Wed, 28 Jun 2017 08:04:48: 6000000 INFO @ Wed, 28 Jun 2017 08:04:48: 6000000 INFO @ Wed, 28 Jun 2017 08:04:50: 7000000 INFO @ Wed, 28 Jun 2017 08:04:55: 7000000 INFO @ Wed, 28 Jun 2017 08:04:55: 7000000 INFO @ Wed, 28 Jun 2017 08:04:57: 8000000 INFO @ Wed, 28 Jun 2017 08:05:02: 8000000 INFO @ Wed, 28 Jun 2017 08:05:03: 8000000 INFO @ Wed, 28 Jun 2017 08:05:04: 9000000 INFO @ Wed, 28 Jun 2017 08:05:09: 9000000 INFO @ Wed, 28 Jun 2017 08:05:11: 9000000 INFO @ Wed, 28 Jun 2017 08:05:11: 10000000 INFO @ Wed, 28 Jun 2017 08:05:16: 10000000 INFO @ Wed, 28 Jun 2017 08:05:18: 11000000 INFO @ Wed, 28 Jun 2017 08:05:18: 10000000 INFO @ Wed, 28 Jun 2017 08:05:23: 11000000 INFO @ Wed, 28 Jun 2017 08:05:25: 12000000 INFO @ Wed, 28 Jun 2017 08:05:25: 11000000 INFO @ Wed, 28 Jun 2017 08:05:31: 12000000 INFO @ Wed, 28 Jun 2017 08:05:32: 13000000 INFO @ Wed, 28 Jun 2017 08:05:32: 12000000 INFO @ Wed, 28 Jun 2017 08:05:38: 13000000 INFO @ Wed, 28 Jun 2017 08:05:38: 14000000 INFO @ Wed, 28 Jun 2017 08:05:40: 13000000 INFO @ Wed, 28 Jun 2017 08:05:45: 14000000 INFO @ Wed, 28 Jun 2017 08:05:45: 15000000 INFO @ Wed, 28 Jun 2017 08:05:47: 14000000 INFO @ Wed, 28 Jun 2017 08:05:52: 16000000 INFO @ Wed, 28 Jun 2017 08:05:52: 15000000 INFO @ Wed, 28 Jun 2017 08:05:54: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:05:54: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:05:54: #1 total tags in treatment: 7821795 INFO @ Wed, 28 Jun 2017 08:05:54: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:05:54: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:05:54: #1 tags after filtering in treatment: 4426994 INFO @ Wed, 28 Jun 2017 08:05:54: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 08:05:54: #1 finished! INFO @ Wed, 28 Jun 2017 08:05:54: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:05:54: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:05:55: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:05:55: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 28 Jun 2017 08:05:55: Process for pairing-model is terminated! cat: SRX2457698.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2457698.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2457698.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2457698.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 08:05:55: 15000000 INFO @ Wed, 28 Jun 2017 08:05:59: 16000000 INFO @ Wed, 28 Jun 2017 08:06:02: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:06:02: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:06:02: #1 total tags in treatment: 7821795 INFO @ Wed, 28 Jun 2017 08:06:02: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:06:02: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:06:02: #1 tags after filtering in treatment: 4426994 INFO @ Wed, 28 Jun 2017 08:06:02: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 08:06:02: #1 finished! INFO @ Wed, 28 Jun 2017 08:06:02: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:06:02: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:06:02: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:06:02: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 28 Jun 2017 08:06:02: Process for pairing-model is terminated! cat: SRX2457698.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2457698.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2457698.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2457698.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Wed, 28 Jun 2017 08:06:02: 16000000 INFO @ Wed, 28 Jun 2017 08:06:05: #1 tag size is determined as 101 bps INFO @ Wed, 28 Jun 2017 08:06:05: #1 tag size = 101 INFO @ Wed, 28 Jun 2017 08:06:05: #1 total tags in treatment: 7821795 INFO @ Wed, 28 Jun 2017 08:06:05: #1 user defined the maximum tags... INFO @ Wed, 28 Jun 2017 08:06:05: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Wed, 28 Jun 2017 08:06:05: #1 tags after filtering in treatment: 4426994 INFO @ Wed, 28 Jun 2017 08:06:05: #1 Redundant rate of treatment: 0.43 INFO @ Wed, 28 Jun 2017 08:06:05: #1 finished! INFO @ Wed, 28 Jun 2017 08:06:05: #2 Build Peak Model... INFO @ Wed, 28 Jun 2017 08:06:05: #2 looking for paired plus/minus strand peaks... INFO @ Wed, 28 Jun 2017 08:06:05: #2 number of paired peaks: 0 WARNING @ Wed, 28 Jun 2017 08:06:05: Too few paired peaks (0) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Wed, 28 Jun 2017 08:06:05: Process for pairing-model is terminated! cat: SRX2457698.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX2457698.10_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2457698.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX2457698.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。